an introduction to revbayes and graphical models

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Tracy A. HeathIowa State University

@trayc7

Michael J. LandisUniversity of California, Berkeley

@landismj

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Prior options in MrBayes v3.2

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Prior options in MrBayes v3.2

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Several software packages inphylogenetics are moving toward amore modular framework

• reuse code

• easier to extend existing modelsand implement new modelsthrough a rich, language-basedinterface

• provides a unified framework foranalyses under complex models

RevBayes

Bali-Phy

BEAST2

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Fully integrative Bayesian inference ofphylogenetic parameters

https://github.com/revbayes/revbayes

Development team

Höhna

Lartillot Huelsenbeck Ronquist

Landis Heath Boussau

& others...

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Graphical models provide tools forvisually & computationally representingcomplex, parameter-rich probabilisticmodels

We can depict the conditionaldependence structure of variousparameters and other random variables

Höhna, Heath, Boussau, Landis, Ronquist, Huelsenbeck. 2014.Probabilistic Graphical Model Representation in Phylogenetics.

Systematic Biology. (doi: 10.1093/sysbio/syu039)

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G M RBDefining the model in the Rev language

G M RBDefining the model in the Rev language

G M RBDefining the model in the Rev language

G M RBDefining the model in the Rev language

G M RBDefining the model in the Rev language

G M RBDefining the model in the Rev language

G M RBDefining the model in the Rev language

G M RBDefining the model in the Rev language